I would imagine the software update was to increase the amount of EGR. The EGR valve should normally be closed at idle and at full load otherwise The driver will notice its effect. It should only open during cruise conditions.
The normal programmed engine idle speed is 903rpm.
The cooling fan runs during the DPF regeneration process. If the engine is switched off whilst regeneration is in progress the cooling fan will continue to run for a few minutes until engine components have cooled sufficiently.
Plenty of owners have made complaints about poor running and performance after the recall. Perhaps it may be worth going back to your dealer to ask if the update can be reversed.
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